Ribosomal protein L6



Ribosomal protein L6 (RPL6) is one of the 34 proteins which belong to the large 50S subunit of the prokaryotic ribosome or to the ca. 49 proteins in the large 60S subunit of the eukaryotic ribosome. It is known to bind to the 5S RRNA from the large subunit. It is located in the aminoacyl-tRNA binding site of the peptidyltransferase center. In the archaea like in Haloarcula marismortui the L6 is called L6P (RPL6P). The images at the left and at the right correspond to one representative RPL6, i.e. the crystal structure of Ribosomal protein L6 from Thermus thermophilus (2xg0, chain H).

3D Structures of Ribosomal protein L6
Update June 2011

RPL6
1rl6 – RPL6 – Geobacillus stearothermophilus

L6 in 50S subunit+RNA
2xg0, 2xg2, 3kir, 3kit, 3kiw, 3kiy – TtRPL6 in 50S subunit+RNA fragments - Thermus thermophilus

2x9s, 2x9u, 3kni, 3knk, 3knm, 3kno, 2wrj, 2wrl, 2wro, 2wrr, 3hux, 3huz, 2wh2, 2wh4, 2wdi, 2wdj, 2wdl, 2wdn, 1vsp, 2v47, 2v49, 1vsa, 2hgj, 2hgq, 2hgu, 2j01, 2j03, 1yl3, 3mrz, 3ms1, 3i8f, 3i8i, 3i9c, 3i9e, 3f1f, 3f1h, 3d5b, 3d5d, 2b66, 2b9n, 2b9p, 1giy, 2xqe, 2y0v, 2y0x, 2y0z,  2y11, 2y13,  2y15,  2y17, 2y19, 3pyo, 3pyr, 3pyt, 3pyv -  TtRPL6 in 50S subunit+5S RRNA+23S RRNA 3fin - TtRPL6 in 50S subunit+5S RRNA+23S RRNA – Cryo-EM

2wwq – EcRPL6 in 50S subunit+5S RRNA+23S RRNA+mRNA+P-site tRNA – Escherichia coli

3i1n, 3i1p, 3i1r, 3i1t, 3i20, 3i22, 3e1b, 3e1d, 3df2, 3df4, 2vhn, 2qov, 2qox, 2i2t, 2i2v, 1vs6, 1vs8, 2aw4, 2awb, 3ofd, 3og0, 1vor, 1vou, 1vow,  1voy,  1vp0, 1pnu, 1pny, 3r8s, 3r8t - EcRPL6 in 50S subunit+5S RRNA+23S RRNA

3fik, 2gya, 2gyc, 3bbx, 1p85, 1p86, 3izt, 3izu - EcRPL6 in 50S subunit+5S RRNA+23S RRNA – Cryo-EM

3kcr - EcRPL6 in 50S subunit+5S RRNA+23S RRNA+preprotein translocase

3j01 – EcRPL6 in 50S subunit+5S RRNA+23S RRNA+preprotein translocase – Cryo-EM

2rdo - EcRPL6 in 50S subunit+5S RRNA+23S RRNA+EF-G+RRF – Cryo-EM

3bbo - RPL6 in 50S subunit+5S RRNA+23S RRNA+4.8S RRNA – Cryo-EM – spinach

2zjq, 2zjr, 1nkw - DrRPL6 in 50S subunit+5S RRNA+23S RRNA – Deinococcus radiodurans

1kqs, 1qvg - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+CCA - Haloarcula marismortui

1jj2, 1ffk, 3cc2, 2qa4, 1s72 - HmRPL6P in 50S subunit+5S RRNA+23S RRNA

3cc7, 3cce, 3ccj, 3ccl, 3ccm, 3ccq, 3ccr, 3ccs, 3ccu, 3ccv - HmRPL6P in 50S subunit+5S RRNA+23S RRNA (mutant)

1yj9 - HmRPL6P in 50S subunit (L22 mutant)+5S RRNA+23S RRNA

1vq4, 1vq5, 1vq7, 1vql, 1vqm, 1vqp - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+transition state analog

1vq6, 1vqk, 1vqn - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+ c-hpmn+CCA-Phe-caproic acid-biotin

1q86 - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+CCA-Phe-caproic acid-biotin

1vqo - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+ CCPMN

1qvf - HmRPL6P in 50S subunit+5S RRNA+23S RRNA + deacylated tRNA minihelix

L6 in 50S subunit + antibiotics
3dll, 2zjp, 3cf5, 1xbp, 1sm1, 1nwx, 1nwy, 3pio, 3pip - DrRPL6 in 50S subunit+5S RRNA+23S RRNA+antibiotic

2ogm, 2ogn, 2ogo - DrRPL6+23S RRNA+pleuromutilin derivative

3oh5, 3oh7, 3ohj, 3ohk, 3ohz, 3oi1, 3oi3, 3oi5 – TtRPL6 in 50S subunit+5S RRNA+23S RRNA+antibiotic

2qam, 2qao, 2qba, 2qbc, 2qoz, 2qp1, 3ofc, 3ofz, 3ofq, 3ofr, 1vt2, 3orb, 3oas, 3oat - EcRPL6 in 50S subunit+5S RRNA+23S RRNA+antibiotic

1k73, 1kc8, 1k8a, 1k9m, 1kd1, 1m1k, 3i55, 3i56, 3g4s, 3g6e, 3g71, 2qex, 3cpw, 3cc4, 3cd6, 2otj, 2otl, 1yit, 1q7y, 1q81, 1q82, 1n8r, 1nji, 3cxc - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+antibiotic - Halobacterium marismortui

1yhq, 1yi2, 1yij, 1yjn, 1yjw - HmRPL6P in 50S subunit+5S RRNA+23S RRNA (mutant)+antibiotic

1m90, 3cma, 3cme, 1vq8, 1vq9 - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+ sparsomycin+CCA-Phe-caproic acid-biotin

L6 in large 60S ribosomal subunit
3o58, 3o5h – yRPL6 in 60S subunit+25S RRNA+5SRRNA+5.8RRNA

3izr – RPL6 in 60S subunit – wheat – Cryo-EM

L6 in large + small ribosomal subunit
1ml5 - EcRPL6 in 50S ribosomal subunit+30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+tRNA Phe+mRNA fragment+23S RRNA+5S RRNA+16S RRNA – EM

L6 in 50S subunit + ribosome releasing factor (RRF)
2qbe, 2qbg, 2qbi, 2qbk, 2z4l, 2z4n - EcRPL6 in 50S subunit+5S RRNA+23S RRNA+RRF

L6 in 50S subunit + various proteins
2vhm - EcRPL6 in 50S subunit+5S RRNA+23S RRNA+PDF C-terminal helix

2j28 - EcRPL6 in 50S subunit+5S RRNA+23S RRNA+signal recognition particle – Cryo-EM

1w2b - HmRPL6P in 50S subunit+5S RRNA+23S RRNA+trigger factor N-terminal

L6 in part of 50S subunit
1c04 – HmRPL6P+RPL2+RPL11+RPL14+23S RRNA fragment

1eg0 – EcRPL6+RPL1+RPL11+RPS4+RPS5+RPS6+RPS7+RPS8+RPS15+RPS17+RPS20+fMet-tRNA+23S RRNA fragment – Cryo-EM

487d – RPL6+RPL1+RPL2+RPL9+RPL11+RPL14+RPL25 – Cryo-EM